SWAT4LS Semantic Web Applications and Tools for Life Sciences
*** apologies for multiple postings ***
--- updates ---
We are glad to announce that there will be a special issue of the BMC
Journal of Biomedical Semantics dedicated to the SWAT4LS workshop.
This is a new open access journal published by BMC and we are
confident that the supplement will benefit from the additional
exposure and promotion associated with its launch (more information on
this journal can be found at http://www.jbiomedsem.com/).
The call for this special issue will be open to all the contributors
to the SWAT4LS workshop (accepted papers, posters and demos). Authors
will be invited to submit an extended version of their work,
elaborated in the light of the discussion held at the workshop.
Workshop proceedings will be published on CEUR.
In order to facilitate submissions, we have extended submission
deadlines as follows:
intention to submit (abstract only): October 5th
submission of papers: October 12
submission of posters and demos: October 15
communication of acceptance: October 28
camera ready: November 13
Due to the limited time for reviews, we would ask you to submit an
abstract of your paper by October 5th, in order to facilitate
assignment of reviews.
The lenght of contributions to the workshop as been revised to offer
more flexibility:
* Submissions for Oral communications should be between 8 and 15
pages.
* Posters submissions should be between 2 and 4 pages.
* Software demo proposals should also be between 2 and 4 pages.
Finally, we would like to announce that the special issue BMC
Bioinformatics dedicated to SWAT4LS-2008 will be published on October
1st (BMC Bioinformatics, Vol 10, Supp 10)
--- call for papers ---
***Location and date
Amsterdam, Science Park, November 20th 2009
(http://swat4ls.org/2009/)
***Rationale
The adoption of semantic-enabled applications and collaborative social
environments is ever more common in the Life Sciences. The Semantic
Web provides a set of technologies and standards that are key to
support semantic markup, ontology development, distributed information
resources and collaborative social environments. Altogether the
adoption of the Semantic Web in the Life Sciences has potential impact
on the future of publishing, biological research and medecine. This
workshop will provide a venue to present and discuss benefits and
limits of the adoption of these technologies and tools in biomedical
informatics and computational biology. It will showcase experiences,
information resources, tools development and applications. It will
bring together researchers, both developers and users, from the
various fields of Biology, Bioinformatics and Computer Science, to
discuss goals, current limits and some real use cases for Semantic Web
technologies in Life Sciences.
***Topics
Topics of interest include, but are not limited to:
* Standards, Technologies, Tools for the Semantic Web
o Semantic Web standards and new proposals (RDF, OWL,
SKOS,... )
o Biomedical Ontologies and related tools
o Formal approaches to large biomedical knowledge bases
* Systems for a Semantic Web for Bioinformatics
o RDF stores, Reasoners, query and visualization systems
for life sciences
o Semantic biomedical Web Services
o Semantics aware Biological Data Integration Systems
* Existing and prospective applications of the Semantic Web for
Bioinformatics
o Semantics aware application tools
o Semantic collaborative research environments
o Case studies, use cases, and scenarios
***Scientific Program
The workshop will be interactive and include keynotes, oral
presentations, panel discussion and a poster and demo session.
The keynote speakers of this edition will be:
* Barend Mons
(http://www.biosemantics.org/index.php?page=barend-mons
)
* Michael Schroeder (http://www.biotec.tu-dresden.de/schroeder)
* Alan Ruttenberg
(http://sciencecommons.org/about/whoweare/ruttenberg/
)
***Scientific Committee (committed so far:)
* Christopher J. O. Baker, Department of Computer Science and
Applied Statistics, University of Brunswick, Canada
* Pedro Barahona, Department of Informatics, New University of
Lisboa, Lisboa, Portugal
* Liliana Barrio-Alvers, Transinsight GmbH, Dresden, Germany
* Olivier Bodenreider, National Library of Medicine, Bethesda,
MD, United States of America
* Matt-Mouley Bouamrane, School of Computer Science, University
of Machester, manchester, United Kingdom
* Werner Ceusters, NY CoE in Bioinformatics and Life Sciences,
University at Buffalo, Buffalo, NY, United States of America
* Kei Cheung, Center for Medical Informatics, Yale University
School of Medicine, New Haven, United States of America
* Tim Clark, Massachusetts General Hospital and Harvard Medical
School, Boston MA, United States of America
* Marie-Dominique Devignes, LORIA, Vandoeuvre les Nancy, France
* Olivier Dameron, INSERM U936, University of Rennes 1, France
* Michel Dumontier, Carleton University, Ottawa, Ontario, Canada
* Huajun Chen, Zhejiang University, China
* Duncan Hull, School of Chemistry, University of Manchester, UK
* C. Maria Keet, Faculty of Computer Science, Free University of
Bozen-Bolzano, Bolzano, Italy
* Graham Kemp, Chalmers University of Technology, Sweden
* Jacob Tilman Koehler, Department of Molecular Biotechnology,
Institute of Medical Biology, University of TromsÃ¶, TromsÃ¶, Norway
* Michael Krauthammer, Department of Pathology, Yale University
School of Medicine, United States of America
* Martin Kuiper, Department of Pathology, Systems Biology group,
Department of Biology, Norwegian University of Science and Technology,
Trondheim, Norway
* Patrick Lambrix, Department of Computer and Information
Science, LinkÃ¶ping University, LinkÃ¶ping, Sweden
* Phillip Lord, School of Computing Science, Newcastle
University, Newcastle-upon-Tyne, United Kingdom
* M. Scott Marshall, Leiden University Medical Center /
University of Amsterdam, The Netherlands
* Chris Mungall, Lawrence Berkeley National Laboratories, United
States of America
* Stephan Philippi, Institute for Software Technology,
University of Koblenz-Landau, Koblenz, Germany
* Marco Roos, Instituut voor Informatica, University of
Amsterdam, Netherlands
* Alan Ruttenberg, Science Commons, Cambridge, MA, United States
of America
* Matthias Samwald, DERI, Galway, Ireland, and Konrad Lorenz
Institute for Evolution and Cognition Research, Altenberg, Austria
* Nigam Shah, Center for Biomedical Informatics Research,
Stanford, United States of America
* Michael SchrÃ¶der, Biotechnology Centre, TU Dresden, Dresden,
Germany
* Robert Stevens, School of Computer Science, University of
Manchester, Manchester, United Kingdom
* Tetsuro Toyoda, Genomic Sciences Center, RIKEN, Yokohama, Japan
* Mark D. Wilkinson, iCAPTURE Center, St. Paul Hospital,
Vancouver, Canada
and the organizers
***Type of contributions
The following possible contributions are sought:
* Oral communications (regular papers)
* Posters
* Software demos
***Proceedings
All accepted oral communications and posters will be published with
the CEUR-WS.org Workshop Proceedings service (see http://ceur-ws.org/).
We are finalizing the agreement to have a dedicated special issue on
the 2009 edition of swat4ls in an international scientific journal of
the BMC group (open access, pubmed indexed).
To this end, a special Call will be launched shortly after the
workshop, for extended and revised versions of contributions submitted
to the workshop and accepted either as oral communication or poster.
***New Deadlines
* Intention to submit (abstract only): October 5th
* Submission of papers: October 12
* Submission of posters and demos: October 15
* Communication of acceptance: October 28
* Camera ready: November 13
***Instructions
All papers and posters must be in English and must be submitted
through the EasyChair review system at
http://www.easychair.org/conferences/?conf=swat4ls-09 .
Please upload all submissions as PDF files in LNCS format
(http://www.springer.de/comp/lncs/authors.html
).
To ensure high quality, submitted papers will be carefully peer-
reviewed by at least three members of the Scientific Committee.
* Submissions for Oral communications should be between 8 and 15
pages.
* Posters submissions should be between 2 and 4 pages.
* Software demo proposals should also be between 2 and 4 pages.
***Organization
* M. Scott Marshall, Leiden University Medical Center /
University of Amsterdam, The Netherlands
* Albert Burger, School of Mathematical and Computer Sciences,
Heriot-Watt University, and Human Genetics Unit, Medical Research
Council, Edinburgh, Scotland, United Kingdom
* Adrian Paschke, Corporate Semantic Web, Freie Universitaet
Berlin, Germany
* Paolo Romano, Bioinformatics, National Cancer Research
Institute, Genova, Italy
* Andrea Splendiani, Biomathematics and Bioinformatics dept.,
Rothamsted Research, UK
***More information
* http://www.swat4ls.org/2009/
* http://swat4ls.blogspot.com
* info@swat4ls.org